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Annotation of /pkg/ChangeLog

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Revision 392 - (view) (download)

1 : bates 392 2004-12-14 Douglas Bates <bates@bates1-home>
2 :    
3 :     * R/sscMatrix.R: Add determinant methods
4 :    
5 :     * src/triplet.[ch],src/init.c (triplet_to_matrix): Add a coercion
6 :     for tripletMatrix to matrix.
7 :    
8 : bates 388 2004-12-13 Douglas Bates <bates@bates1-home>
9 :    
10 : bates 392 * R/AllClass.R (.onLoad): Eliminate the bbCrosstab class, which is
11 :     no longer used.
12 :    
13 : bates 388 * src/R_ldl.c: Created an R-specific version of the ldl.[ch] files
14 :     with dynamic allocation of scratch arrays.
15 :    
16 :     * src/ssclme.c (ssclme_copy_ctab): Fixed bug in creation of ZtZ
17 :     for multivariate random effects with multiple grouping factors.
18 :     Fixes part but not all of #15.
19 :    
20 : bates 375 2004-12-03 Douglas Bates <bates@bates1-home>
21 :    
22 :     * src/lmeRep.c (lmeRep_factor): order of operations for multiple
23 :     scalar grouping factors corrected.
24 :    
25 :     2004-11-29 Douglas Bates <bates@bates1-home>
26 :    
27 :     * src/bCrosstab.c: remove diag_update which is no longer used
28 :    
29 : bates 350 2004-11-16 Douglas Bates <bates@bates1-home>
30 :    
31 :     * src/Metis_utils.c: Move metis.h include to C sources so that the
32 :     .h file can be included.
33 :    
34 : bates 342 2004-11-12 Douglas Bates <bates@bates1-home>
35 :    
36 : bates 350 * src/LU.c,geMatrix.c,trMatrix.c, etc.:
37 : bates 342 Complete allocation of slots in NEW_OBJECT.
38 :    
39 :     * src/Mutils.h: Moved list of symbols to an include file
40 :    
41 :     2004-11-11 Douglas Bates <bates@bates1-home>
42 :    
43 :     * src/geMutils.c (Matrix_init): remove unused function
44 :    
45 :     2004-11-10 Douglas Bates <bates@bates1-home>
46 :    
47 :     * src/cscMatrix.c (csc_to_imagemat): removed unused function
48 :    
49 : bates 327 2004-11-05 Douglas Bates <bates@bates1-home>
50 :    
51 :     * src/Makefile.win (SOURCES_C): Keep consistent with Makefile
52 :    
53 : bates 303 2004-10-27 Douglas Bates <bates@bates1-home>
54 :    
55 :     * R/pdmatrix.R: remove PACKAGE="Matrix" in .Call calls
56 :    
57 : bates 296 2004-10-04 Douglas Bates <bates@bates1-home>
58 :    
59 :     * src/init.c: Created R_init_Matrix and added registration of C
60 :     routines.
61 :    
62 : bates 283 2004-10-02 Douglas Bates <bates@bates1-home>
63 :    
64 :     * R/tripletMatrix.R: Force a require(lattice) for the image methods.
65 :    
66 : bates 229 2004-06-15 Douglas Bates <bates@bates7>
67 :    
68 :     * man/trMatrix-class.Rd: Escape the % chars in .Rd files.
69 :    
70 : bates 111 2004-04-20 Douglas Bates <bates@stat.wisc.edu>
71 :    
72 :     * src/Makefile.win ($(SHLIB)): Modifications per Uwe Ligges.
73 :    
74 : bates 109 2004-04-19 Douglas Bates <bates@stat.wisc.edu>
75 :    
76 :     * src/ssclme.c (ssclme_update_mm): fix logic error in
77 :     ssclme_update_mm
78 :    
79 : bates 105 2004-04-18 Douglas Bates <bates@stat.wisc.edu>
80 :    
81 :     * src/ssclme.c (ssclme_coef, ssclme_coefGets): Create consistency
82 :     in the order of unconstrained and constrained parameters.
83 :     (ssclme_gradient): Added the gradients (not yet correct for
84 :     multidimensional, unconstrained case).
85 :    
86 : bates 78 2004-04-14 Douglas Bates <bates@stat.wisc.edu>
87 :    
88 :     * src/ssclme.c (ssclme_EMsteps): Fix logic in REML update
89 :    
90 :     * src/Makefile.win: Remove unneeded ranlib call
91 :    
92 : bates 71 2004-04-12 Douglas Bates <bates@stat.wisc.edu>
93 :    
94 :     * DESCRIPTION (Version): New release
95 :    
96 :     * src/Makefile.win: Update Makefile.win to umfpack removal.
97 :    
98 : bates 49 2004-04-05 Douglas Bates <bates@bates2_home>
99 :    
100 :     * src/triplet_to_col.c: Create triplet_to_col as a native
101 :     function, not the version from umfpack. There were problems with
102 :     the configuration of UMFPACK for 64-bit processors and there was
103 :     only one umfpack routine being used so I moved it here.
104 :    
105 : bates 45 2004-04-04 Douglas Bates <bates@bates2_home>
106 :    
107 :     * src/ssclme.c (ssclme_variances): New function.
108 :    
109 : bates 28 2004-03-28 Douglas Bates <bates@bates2_home>
110 :    
111 :     * src/ssclme.c (ssclme_fitted): Added function.
112 :    
113 : bates 22 2004-03-27 Douglas Bates <bates@bates2_home>
114 :    
115 :     * src/ssclme.c (ssclme_transfer_dimnames): Add new function to
116 :     store the dimnames in the XtX and bVar slots
117 :     (ssclme_update_mm): Change the dimensions of the bVar slot
118 :     components and the returned value from ssclme_ranef.
119 :    
120 : bates 10 2004-03-18 Douglas Bates <bates@stat.wisc.edu>
121 :    
122 :     * R/{pdMat.R,pdIdent.R,pdLogChol.R,pdMatrixLog.R,pdNatural.R},
123 :     src/{pdMat.c,pdIdent.c,pdLogChol.c,pdNatural.c},
124 :     tests/{pdCompSymm.R,pdDiag.R,pdIdent.R,pdLogChol.R,pdNatural.R},
125 :     man/{pdMat-class.Rd,pdmatrix-class.Rd,corrmatrix-class.Rd,
126 :     pdDiag-class.Rd,pdIdent-class.Rd,pdNatural-class.Rd,
127 :     pdLogChol-class.Rd,coefGets.Rd,pdCompSymm-class.Rd,
128 :     pdfactor-class.Rd,pdFactor.Rd,pdMatrix.Rd,
129 :     pdBlocked-class.Rd},AllClass.R,AllGeneric.R:
130 :     Moved the pdMat classes from the lme4 package.
131 :    
132 :     2004-03-02 Douglas Bates <bates@stat.wisc.edu>
133 :    
134 :     * man/ssclme-class.Rd: Update definition and documentation of the
135 :     ssclme class to include the DIsqrt slot.
136 :    
137 :     * src/ssclme.c (ssclme_deviance): Modify order of computation
138 :     (much faster using dsyrk, a level 3 BLAS routine).
139 :    
140 :     * src/Makefile (SUBLIBS): Change definition (K. Hornik)
141 :    
142 :     2004-02-28 Douglas Bates <bates@stat.wisc.edu>
143 :    
144 :     * tests/ssclme.R: Modify the test to account for the permutation
145 :     of the levels of the grouping factors.
146 :    
147 :     2004-02-23 Douglas Bates <bates@stat.wisc.edu>
148 :    
149 :     * R/ssclme.R,src/ssclme.c (ssclme): Move slots of sscCrosstab slot
150 :     directly into the ssclme class definition.
151 :    
152 :     2004-02-22 Douglas Bates <bates@stat.wisc.edu>
153 :    
154 :     * DESCRIPTION (Date): New release
155 :    
156 :     * man/ssclme-class.Rd: new file.
157 :    
158 :     * src/ssclme.c (ssclme_loglik): major revisions in design. It
159 :     works and it's fast!
160 :    
161 :     2004-02-17 Douglas Bates <bates@stat.wisc.edu>
162 :    
163 :     * src/taucs/Makefile.win (lib): Change "ar" to "$(AR)" (B.Ripley)
164 :    
165 :     2004-02-16 Douglas Bates <bates@stat.wisc.edu>
166 :    
167 :     * DESCRIPTION (Date): New release
168 :    
169 :     * NAMESPACE: Don't export ssclme.
170 :    
171 :     * data/ScotsSec.rda, man/ScotsSec.Rd: Add Scottish secondary
172 :     school data.
173 :    
174 :     2004-02-11 Douglas Bates <bates@stat.wisc.edu>
175 :    
176 :     * src/sscCrosstab.c (sscCrosstab): Added a row to the incidence to
177 :     keep track of the fixed-effects and the response. Counts also
178 :     gets an extra element, which is always one.
179 :    
180 :     * src/ldl.c: Include these routines from Tim Davis' LDL package.
181 :    
182 :     2004-02-10 Douglas Bates <bates@stat.wisc.edu>
183 :    
184 :     * src/cscMatrix.c (csc_transpose): new function
185 :    
186 :     * src/Mutils.c (csc_sort_columns): perm/iperm confusion corrected
187 :     (csc_components_transpose): new function
188 :    
189 :     2004-02-06 Douglas Bates <bates@stat.wisc.edu>
190 :    
191 :     * src/triplet.c (triplet_validate): Fix Dim slot on generated
192 :     triplets
193 :    
194 :     2004-01-30 Douglas Bates <bates@stat.wisc.edu>
195 :    
196 :     * R/sscCrosstab.R (sscCrosstab): Added sscCrosstab generator function.
197 :    
198 :     * src/LU.h (MATRIX_LU_H): Add #ifndef #define ... #endif to this
199 :     and all other .h files in src.
200 :    
201 :     * src/Makefile.win: This and other Makefile.win files contributed
202 :     by Brian Ripley.
203 :    
204 :     2004-01-27 Douglas Bates <bates@stat.wisc.edu>
205 :    
206 :     * R/syMatrix.R: Added methods for "%*%".
207 :    
208 :     * R/Hilbert.R (Hilbert): Changed Hilbert function to return a
209 :     poMatrix object.
210 :    
211 :     2004-01-26 Douglas Bates <bates@stat.wisc.edu>
212 :    
213 :     * man/sscChol-class.Rd,man/mm.Rd,man/y.Rd: Added man pages.
214 :    
215 :     2004-01-25 Douglas Bates <bates@bates2_home>
216 :    
217 :     * inst/doc/Introduction.Rnw,Comparisons.Rnw: Added vignettes.
218 :    
219 :     * R/csc.R: Convert all cscMatrix classes to use Dim slot instead
220 :     of nrow.
221 :    
222 :     2003-12-31 Douglas Bates <bates@stat.wisc.edu>
223 :    
224 :     * src/taucs/taucs.h: Moved taucs.h, amd.h, and umfpack.h into
225 :     subdirectories.
226 :    
227 :     2003-12-08 Douglas Bates <bates@stat.wisc.edu>
228 :    
229 :     * src/taucs.h: Accidently referred to global header files
230 :     instead of local files.
231 :    
232 :     2003-12-04 Douglas Bates <bates@stat.wisc.edu>
233 :    
234 :     * R/AllClass.R: Lots of changes. Removed all the lapack++ code
235 :     and methods and replaced all classes with S4 classes.
236 :    
237 :     2003-04-19 Douglas Bates <bates@stat.wisc.edu>
238 :    
239 :     * R/det.R,man/det.Rd: Change name of det generic to determinant
240 :    
241 :     * src/R_LapackPP.cc: Change method of calculating determinants
242 :    
243 :     2003-02-03 Douglas Bates <bates@stat.wisc.edu>
244 :    
245 :     * DESCRIPTION (Version): removed empty data directory as requested
246 :     by CRAN maintainers. Changed version number and date.
247 :    
248 :     2002-10-23 Douglas Bates <bates@stat.wisc.edu>
249 :    
250 :     * src/laindex.h: Applied patches from Brian Ripley for compilation
251 :     under Windows.
252 :    
253 :     * Added configure.win and src/Makevars.win as requested by Brian
254 :     Ripley.
255 :    
256 :     2002-05-03 Douglas Bates <bates@stat.wisc.edu>
257 :    
258 :     * src/lamatrix.h: Removing pre-1.2.0 compatibility code per Kurt
259 :     Hornik.
260 :    
261 :     2002-04-24 Douglas Bates <bates@stat.wisc.edu>
262 :    
263 :     * configure.ac: Replaced configure.in with configure.ac
264 :     contributed by Kurt Hornik.
265 :    
266 :     * aclocal.m4 (ac_clean_files): Replaced this with Kurt Hornik's
267 :     version for R-1.5.0
268 :    
269 :    
270 :     2001-12-10 Douglas Bates <bates@stat.wisc.edu>
271 :    
272 :     * man/eigen.Rd: Removed the .Alias in the example

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